fas2bin: Convert a File in FASTA Format to Binary

In andrew-hipp/morton: Tools for manipulation of phylogenetic, genetic, and other biodiversity data

Convert a File in FASTA Format to Binary

Usage

fas2bin(infile, outfile, ...)

Arguments

infile	The address of the FASTA file to be converted. If not in the current working directory, provide the full address. The FASTA file must contain amino acid sequences, not DNA sequences.
outfile	The name (or full address, if necessary) of the output FASTA file to be written, containing the binary matrix.
...	Any other arguments that can be passed to the function write.fasta from the ape package.

Details

This code makes use of the function make.binary from the same package. See documentation of that function for more details on requirements for the binary matrix.

Value

The converted matrix, where there can only be two states per column.

Author(s)

Andrew Hipp and Kasey Pham

See Also

make.binary, write.fasta

andrew-hipp/morton documentation built on April 7, 2024, 12:15 p.m.